774 search results for "parallel"

Speeding up R with Intel’s Math Kernel Library (MKL)

May 2, 2012
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I did some comparisons of the generic BLAS with Intel's MKL (both sequential and parallel) on a Dell PowerEdge 610 server with dual hyperthreading 6-core 3.06GHz Xeon X5675 processors.  Here are the results from an R benchmarking script (Normal R indicates the generic BLAS,  sMKL is the sequential (single core Intel MKL, and pMKL is the parallel Intel MKL using...

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phyloseq: Reproducible interactive analysis of microbiome census data using R

April 26, 2012
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phyloseq: Reproducible interactive analysis of microbiome census data using R

Collaborative development of phyloseq on GitHub. Official stable release of phyloseq on Bioconductor. Advances in DNA sequencing technology have dramatically improved the scope and scale of culture-independent investigations into microbial communities. There are effective software tools available to process raw DNA … Continue reading →

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AdfTest Function Enhanced With Rcpp Armadillo

April 26, 2012
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In my previous post about rewriting my code to run in parallel part one I mentioned that we will make a small change to adfTest() function as well. In this post we will perform this small but performance-dramatic change. When you take a closer look at the source code of this particular function from fUnitRoots package

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spam evolution

April 26, 2012
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spam evolution

Despite some rather modest protection (like a simple captcha), I still receive spammy comments on this blog every now and again. They’re easily spotted and actually never appear on the website. There’s obviously an incentive for the spammer to post … Continue reading →

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Introduction to Oracle R Connector for Hadoop

April 23, 2012
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MapReduce, the heart of Hadoop, is a programming framework that enables massive scalability across servers using data stored in the Hadoop Distributed File System (HDFS). The Oracle R Connector for Hadoop (ORCH) provides access to a Hadoop cluster from R, enabling manipulation of HDFS-resident data and the execution of MapReduce jobs. Conceptutally, MapReduce is similar...

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Tuning GAMBoost

April 23, 2012
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Tuning GAMBoost

This post describes some of the simulation results which I obtained with the GAMBoost package. The aim of these simulations is to get a feel what I should tune and what I should not tune with GAMBoost. SetupIn the GAMBoost package one can tune qui...

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Visualising the Path of a Genetic Algorithm

April 23, 2012
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Visualising the Path of a Genetic Algorithm

We quite regularly use genetic algorithms to optimise over the ad-hoc functions we develop when trying to solve problems in applied mathematics. However it’s a bit disconcerting to have your algorithm roam through a high dimensional solution space while not being able to picture what it’s doing or how close one solution is to another. … Continue reading...

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Oracle R Distribution 2-13.2 Update Available

April 13, 2012
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Oracle has released an update to the Oracle R Distribution, an Oracle-supported distribution of open source R. Oracle R Distribution 2-13.2 now contains the ability to dynamically link the following libraries on both Windows and Linux: The I...

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R, Julia and the shiny new thing

April 12, 2012
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R, Julia and the shiny new thing

My head exploded a while ago. Perhaps not my head but my brain was all mushy after working every day of March and first week of April; an explanation—as good as any—for the post hiatus. Back to the post title. … Continue reading →

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PostgreSQL Scalability Analysis Deconstructed

April 11, 2012
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PostgreSQL Scalability Analysis Deconstructed

In 2010, I presented my universal scalability law (USL) at the SURGE conference. I came away with the impression that nobody really understood what I was talking about (quantifying scalability) or, maybe DevOps types thought it was all too hard (math). Since then, however, I've come to find out that people like Baron Schwartz did get it...

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